- PDB-4pv1: Cytochrome B6F structure from M. laminosus with the quinone analo... -
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基本情報
登録情報
データベース: PDB / ID: 4pv1
タイトル
Cytochrome B6F structure from M. laminosus with the quinone analog inhibitor stigmatellin
要素
(Cytochrome b6-f complex subunit ...) x 5
Apocytochrome f
Cytochrome b6
Cytochrome b6-f complex iron-sulfur subunit
キーワード
ELECTRON TRANSPORT/INHIBITOR / ALPHA HELIX / BETA SHEET / PLASTOQUINOL:PLASTOCYANIN OXIDOREDUCTASE / PLASTOCYANIN / THYLAKOID MEMBRANE / ELECTRON TRANSPORT-INHIBITOR COMPLEX
機能・相同性
機能・相同性情報
plastoquinol--plastocyanin reductase activity / cytochrome b6f complex / plastoquinol-plastocyanin reductase / electron transporter, transferring electrons within cytochrome b6/f complex of photosystem II activity / cytochrome complex assembly / photosynthetic electron transport chain / ubiquinol-cytochrome-c reductase activity / plasma membrane-derived thylakoid membrane / electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity / photosynthesis ...plastoquinol--plastocyanin reductase activity / cytochrome b6f complex / plastoquinol-plastocyanin reductase / electron transporter, transferring electrons within cytochrome b6/f complex of photosystem II activity / cytochrome complex assembly / photosynthetic electron transport chain / ubiquinol-cytochrome-c reductase activity / plasma membrane-derived thylakoid membrane / electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity / photosynthesis / respiratory electron transport chain / 2 iron, 2 sulfur cluster binding / electron transfer activity / iron ion binding / heme binding / metal ion binding 類似検索 - 分子機能
Single helix bin / plastocyanin oxidoreductase / Cytochrome b6-f complex subunit 6 / Cytochrome b6-f complex iron-sulfur subunit / Cytochrome b6/f complex, subunit 5 / Cytochrome b6-f complex, subunit 8 / Cytochrome b6/f complex, subunit IV / PetM of cytochrome b6/f complex subunit 7 / Cytochrome b6, PetB / Cytochrome b6/f complex, subunit 5 superfamily ...Single helix bin / plastocyanin oxidoreductase / Cytochrome b6-f complex subunit 6 / Cytochrome b6-f complex iron-sulfur subunit / Cytochrome b6/f complex, subunit 5 / Cytochrome b6-f complex, subunit 8 / Cytochrome b6/f complex, subunit IV / PetM of cytochrome b6/f complex subunit 7 / Cytochrome b6, PetB / Cytochrome b6/f complex, subunit 5 superfamily / Cytochrome b6-f complex, subunit 8 superfamily / Cytochrome B6-F complex subunit 5 / PetN / PetM family of cytochrome b6f complex subunit 7 / Cytochrome f large domain / Cytochrome f transmembrane anchor / Cytochrome f / Cytochrome f large domain / Cytochrome f large domain superfamily / Apocytochrome F, C-terminal / Apocytochrome F, N-terminal / Cytochrome f family profile. / Single helix bin / Cytochrome Bc1 Complex; Chain C / Cytochrome Bc1 Complex; Chain C / Rieske Iron-sulfur Protein / Rieske [2Fe-2S] iron-sulphur domain / 3-layer Sandwich / : / : / Cytochrome b/b6, C-terminal / Cytochrome b(C-terminal)/b6/petD / Cytochrome b/b6 C-terminal region profile. / Cytochrome b/b6, C-terminal domain superfamily / Cytochrome b/b6/petB / RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain / Rieske iron-sulphur protein, C-terminal / Cytochrome b/b6, N-terminal / Cytochrome b/b6-like domain superfamily / Cytochrome b/b6 N-terminal region profile. / Di-haem cytochrome, transmembrane / Rudiment single hybrid motif / Rieske iron-sulphur protein / Rieske [2Fe-2S] iron-sulphur domain / Rieske [2Fe-2S] domain / Rieske [2Fe-2S] iron-sulfur domain profile. / Rieske [2Fe-2S] iron-sulphur domain superfamily / Single alpha-helices involved in coiled-coils or other helix-helix interfaces / OB fold (Dihydrolipoamide Acetyltransferase, E2P) / Helix Hairpins / Up-down Bundle / Immunoglobulin-like / Beta Barrel / Sandwich / Orthogonal Bundle / Mainly Beta / Mainly Alpha 類似検索 - ドメイン・相同性
プロトコル: SINGLE WAVELENGTH / 単色(M)・ラウエ(L): M / 散乱光タイプ: x-ray
放射波長
波長: 0.97934 Å / 相対比: 1
反射
解像度: 2.997→137.772 Å / Num. obs: 50303 / % possible obs: 91.4 % / 冗長度: 9.8 % / Net I/σ(I): 17.4
反射 シェル
解像度: 3→3.05 Å / 冗長度: 5 % / Mean I/σ(I) obs: 0.6 / % possible all: 38
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解析
ソフトウェア
名称
バージョン
分類
PHENIX
(PHENIX.REFINE: 1.8.4_1496)
精密化
REFMAC
精密化
HKL-2000
データ削減
HKL-2000
データスケーリング
REFMAC
位相決定
精密化
構造決定の手法: RIGID BODY REFINEMENT, RESTRAINED REFINEMENT 解像度: 3→48.34 Å / SU ML: 0.37 / σ(F): 1.34 / 位相誤差: 26.92 / 立体化学のターゲット値: ML / 詳細: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
Rfactor
反射数
%反射
Rfree
0.247
2552
5.08 %
Rwork
0.216
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obs
0.217
50203
91.2 %
溶媒の処理
減衰半径: 0.9 Å / VDWプローブ半径: 1.11 Å / 溶媒モデル: FLAT BULK SOLVENT MODEL